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Items: 1 to 20 of 85

1.

The effect of coupled stochastic processes in a two-state biochemical switch.

Graham GC, Lipan O.

J Biol Phys. 2011 Sep;37(4):441-62. doi: 10.1007/s10867-011-9226-8. Epub 2011 Jun 11.

2.

A probability generating function method for stochastic reaction networks.

Kim P, Lee CH.

J Chem Phys. 2012 Jun 21;136(23):234108. doi: 10.1063/1.4729374.

PMID:
22779582
3.

Exact computation of probability landscape of stochastic networks of Single Input and Coupled Toggle Switch Modules.

Terebus A, Cao Y, Liang J.

Conf Proc IEEE Eng Med Biol Soc. 2014;2014:5228-31. doi: 10.1109/EMBC.2014.6944804.

4.

Stochastic simulation of enzyme-catalyzed reactions with disparate timescales.

Barik D, Paul MR, Baumann WT, Cao Y, Tyson JJ.

Biophys J. 2008 Oct;95(8):3563-74. doi: 10.1529/biophysj.108.129155. Epub 2008 Jul 11.

5.

Stochastic chemical kinetics and the total quasi-steady-state assumption: application to the stochastic simulation algorithm and chemical master equation.

Macnamara S, Bersani AM, Burrage K, Sidje RB.

J Chem Phys. 2008 Sep 7;129(9):095105. doi: 10.1063/1.2971036.

PMID:
19044893
6.

Stochastic quasi-steady state approximations for asymptotic solutions of the chemical master equation.

Alarcón T.

J Chem Phys. 2014 May 14;140(18):184109. doi: 10.1063/1.4874653.

PMID:
24832255
7.

The Goldbeter-Koshland switch in the first-order region and its response to dynamic disorder.

Xing J, Chen J.

PLoS One. 2008 May 14;3(5):e2140. doi: 10.1371/journal.pone.0002140.

8.

How robust are switches in intracellular signaling cascades?

Blüthgen N, Herzel H.

J Theor Biol. 2003 Dec 7;225(3):293-300.

PMID:
14604583
9.

Fast stochastic simulation of biochemical reaction systems by alternative formulations of the chemical Langevin equation.

Mélykúti B, Burrage K, Zygalakis KC.

J Chem Phys. 2010 Apr 28;132(16):164109. doi: 10.1063/1.3380661.

PMID:
20441260
10.

Constructing stochastic models from deterministic process equations by propensity adjustment.

Wu J, Vidakovic B, Voit EO.

BMC Syst Biol. 2011 Nov 8;5:187. doi: 10.1186/1752-0509-5-187.

11.

Zero-order ultrasensitivity: a study of criticality and fluctuations under the total quasi-steady state approximation in the linear noise regime.

Jithinraj PK, Roy U, Gopalakrishnan M.

J Theor Biol. 2014 Mar 7;344:1-11. doi: 10.1016/j.jtbi.2013.11.014. Epub 2013 Dec 3. Erratum in: J Theor Biol. 2014 Jun 7;350:111.

PMID:
24309434
12.

Time delay induced transition of gene switch and stochastic resonance in a genetic transcriptional regulatory model.

Wang C, Yi M, Yang K, Yang L.

BMC Syst Biol. 2012;6 Suppl 1:S9. doi: 10.1186/1752-0509-6-S1-S9. Epub 2012 Jul 16.

13.

Modeling networks of coupled enzymatic reactions using the total quasi-steady state approximation.

Ciliberto A, Capuani F, Tyson JJ.

PLoS Comput Biol. 2007 Mar 16;3(3):e45.

14.

Efficient parametric analysis of the chemical master equation through model order reduction.

Waldherr S, Haasdonk B.

BMC Syst Biol. 2012 Jul 2;6:81. doi: 10.1186/1752-0509-6-81.

15.

Transient analysis of stochastic switches and trajectories with applications to gene regulatory networks.

Munsky B, Khammash M.

IET Syst Biol. 2008 Sep;2(5):323-33. doi: 10.1049/iet-syb:20070082.

PMID:
19045827
17.

Effects of input noise on a simple biochemical switch.

Hu B, Kessler DA, Rappel WJ, Levine H.

Phys Rev Lett. 2011 Sep 30;107(14):148101. Epub 2011 Sep 28.

18.

Stochastic analysis of a miRNA-protein toggle switch.

Giampieri E, Remondini D, de Oliveira L, Castellani G, Lió P.

Mol Biosyst. 2011 Oct;7(10):2796-803. doi: 10.1039/c1mb05086a. Epub 2011 Jun 30.

PMID:
21717010
19.

Eliminating fast reactions in stochastic simulations of biochemical networks: a bistable genetic switch.

Morelli MJ, Allen RJ, Tănase-Nicola S, ten Wolde PR.

J Chem Phys. 2008 Jan 28;128(4):045105. doi: 10.1063/1.2821957. Erratum in: J Chem Phys. 2008 Apr 28;128(16):169901.

PMID:
18248012
20.

Sensing the heat stress by Mammalian cells.

Cates J, Graham GC, Omattage N, Pavesich E, Setliff I, Shaw J, Smith CL, Lipan O.

BMC Biophys. 2011 Aug 11;4:16. doi: 10.1186/2046-1682-4-16.

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